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Showing :
rna
•
reset
3
votes
6
replies
347
views
Limma: log2 of TMM values for RNA-Seq Analysis and PlotMDS()?
Log2
edgeR
RNA
limma
Normalization
11 weeks ago
Sara
• 0
0
votes
0
replies
102
views
Correct GFF3 translation for FeatureCounts
RNASeq
FeatureCounts
Rna
3 months ago
rridley3
• 0
0
votes
1
reply
176
views
Confused about design for RNA seq experiment
RNAseq
ExperimentData
RNAseq123
RNA
ExperimentalDesign
updated 4 months ago by
ATpoint
★ 2.1k • written 4 months ago by
Mohamed
• 0
0
votes
0
replies
253
views
Job:
Scientist/Senior Scientist – Bioinformatics / Computational Biology
MassSpectrometryData
RNA
DifferentialExpression
5 months ago
António Miguel de Jesus Domingues
▴ 490
0
votes
2
replies
293
views
Rsubread align --R session aborts
RNA
Alignment
Rsubread
6 months ago • updated 5 months ago
sreekalasn
• 0
2
votes
1
reply
299
views
Error in RNAseq123 analysis, unexpected symbol.
RNAseq123
Rna
updated 7 months ago by
Gordon Smyth
47k • written 7 months ago by
Mikołaj Mierzejewski
• 0
1
vote
2
replies
485
views
Is it necessary to standardize Combat in R?
RNA
Combat
sva
R
8 months ago
takemoto
• 0
1
vote
1
reply
319
views
Description of the headers obtained from the Eligos2 output
methylation
RNA
native
epitranscriptomics
updated 11 months ago by
tcalvo
▴ 80 • written 11 months ago by
megha.hs28
▴ 10
0
votes
1
reply
387
views
Ensembl dataset version
tximport
rna
rnaseqGene
biomaRt
updated 13 months ago by
ATpoint
★ 2.1k • written 13 months ago by
st3472
• 0
0
votes
0
replies
312
views
Cross-cultivar RNA-seq analysis
RNA
Normalization
21 months ago
nancy
• 0
0
votes
4
replies
693
views
Fitting a continuous variable with batch effect using Limma. Also a question about normalization.
limma
edgeR
rna
22 months ago
Nirad
• 0
0
votes
3
replies
1.1k
views
Pearson correlation between gene expression and phenotype
edgeR
RNASeq
updated 2.2 years ago by
Gordon Smyth
47k • written 2.2 years ago by
weichengz
• 0
4
votes
3
replies
959
views
How to resolve NAs when annotating a diff gene list with org.Hs.eg.db terms?
annotation
rna
updated 2.3 years ago by
James W. MacDonald
62k • written 2.3 years ago by
anthony.nash
▴ 20
2
votes
7
replies
649
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy
rna
hta2.0
r
updated 2.7 years ago by
James W. MacDonald
62k • written 2.7 years ago by
Marco_aurelio
• 0
1
vote
1
reply
388
views
How to interpret coefficients of time course modeled data with DESeq2?
deseq2
RNA
updated 2.8 years ago by
Michael Love
39k • written 2.8 years ago by
agsousa
• 0
0
votes
6
replies
581
views
Bizarre Dispersion Plots
deseq2
RNA
RNASeq
updated 2.9 years ago by
Michael Love
39k • written 2.9 years ago by
stephen.hartley
• 0
0
votes
0
replies
511
views
Job:
Post-doctoral Fellowship at BC Cancer Research Center, Vancouver BC
single cell
RNA
Data analysis
Bioinformatics
Job
3.6 years ago
jmaanaki
• 0
1
vote
1
reply
740
views
how to filter genes in significant module?
RNA
WGCNA
filter
3.6 years ago
modarzi
▴ 10
0
votes
2
replies
552
views
DESeq and checkFullRank(modelMatrix)
RNA
DESeq2
updated 3.8 years ago by
Michael Love
39k • written 3.8 years ago by
Merlin
▴ 10
2
votes
1
reply
459
views
DESeq2 statistic and design
deseq2
RNA
updated 3.8 years ago by
Michael Love
39k • written 3.8 years ago by
Merlin
▴ 10
5
votes
5
replies
826
views
Association analysis between gene expression and Phenotype
rna
singlecell
limma
updated 3.9 years ago by
Aaron Lun
★ 28k • written 3.9 years ago by
hrishi27n
▴ 20
2
votes
3
replies
705
views
Number and percent of mapped reads from RNA seq analysis.
rna-seq
rna
updated 3.9 years ago by
Steve Lianoglou
13k • written 3.9 years ago by
Anthony Nash
▴ 20
1
vote
0
replies
598
views
Job:
1 Computational Biologist and 1 Molecular Biologist
computational biology
molecular biology
RNA
r-loop
ncRNA
Job
4.3 years ago
l.brown
▴ 10
0
votes
0
replies
580
views
R code for finding wobble/redundant positions in an RNA string
r
code
rna
wobble
5.0 years ago
fawazfebin
▴ 50
0
votes
1
reply
658
views
Time series comparison with DESEQ2
RNA
rnaseq
deseq2
updated 5.5 years ago by
Michael Love
39k • written 5.5 years ago by
hrishi27n
▴ 20
0
votes
1
reply
1.1k
views
RNA sequencing analysis for time point experiment using DeSeq2
deseq2
RNA
rnaseq
updated 5.5 years ago by
Michael Love
39k • written 5.5 years ago by
hrishi27n
▴ 20
1
vote
1
reply
854
views
Outliers - to remove or to not remove that is the question
outliers
rna
microarray
updated 5.7 years ago by
chris86
▴ 400 • written 5.7 years ago by
bhgyu
▴ 30
5
votes
4
replies
931
views
Experiment design contrasts any time edgeR
DGE
rnaseq
RNA
edger
updated 5.7 years ago by
londonflavido
• 0 • written 5.7 years ago by
Pietro
▴ 40
3
votes
6
replies
1.4k
views
Regressing effect of treatment on RNA-seq expected count from rsem.
RNA
rna-seq
science
bioinformatics
updated 5.8 years ago by
James W. MacDonald
62k • written 5.8 years ago by
hrishi27n
▴ 20
6
votes
5
replies
2.8k
views
Clustering differential expression results from voomWithQualityWeights
RNA
limma
rsem
edgeR
updated 5.8 years ago by
Gordon Smyth
47k • written 5.8 years ago by
hrishi27n
▴ 20
0
votes
0
replies
1.0k
views
Finding candidate binding sites for RNA binding proteins in R
R
bioconductor
RNA
mRNA
RNA binding proteins
5.9 years ago
Walter F. Baumann
▴ 10
3
votes
1
reply
1.3k
views
Targeted RNASeq/CaptureSeq DE Analysis
EdgeR
deseq2
RNA
differential expression
updated 6.4 years ago by
Aaron Lun
★ 28k • written 6.4 years ago by
tyssowski
• 0
0
votes
4
replies
4.4k
views
RNAseq Adjusting for Covariates?
RNA
rnaseq
Covariate
adjustment
deseq
updated 6.9 years ago by
Michael Love
39k • written 6.9 years ago by
sjs0282
• 0
0
votes
2
replies
975
views
Normalizzation indipentent data from RNAAeq experiment
rna
normalization
8.3 years ago
aristotele_m
▴ 30
34 results • Page
1 of 1
Recent ...
Replies
Comment: TCGA: clinical data and expression data
by
sharifnstu1203002m
• 0
Hello, I am in the same problem. I downloaded "transcriptome profiling" data of TCGA by using the Bioconductor package. I get my gene expr…
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
by
Jonathan Göke
▴ 40
Great to hear that you are using Bambu. Yes, I think that part of your question does not have one correct answer, there are many ways in wh…
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R
by
Gordon Smyth
47k
Choosing which samples to normalize together is not dependent on library size but rather on (1) whether the tissue samples are comparable a…
Comment: Atena package - error (new user)
by
lalanis1
• 0
Thanks a lot, Calvo. Will run my files with revised version soon! Best regards, Lalani
Comment: Nested paired design with covariates in limma
by
Gordon Smyth
47k
Please post a new question with enough detail to answer your question. If you want bespoke advance, then you need to post the details of yo…
Votes
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R
C: Can't install TopmedPipeline Package
Comment: Question about GWASTools gdsSubset
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
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James W. MacDonald
62k
Teacher
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Michael Love
39k
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Gordon Smyth
47k
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to
Bogdan
▴ 660
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to
Martin Morgan
25k
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